Amadis: A Comprehensive Database for Association Between Microbiota and Disease

Abstract

The human gastrointestinal tract represents a symbiotic bioreactor that can mediate the interaction of the human host. The deployment and integration of multi-omics technologies have depicted a more complete image of the functions performed by microbial organisms. In addition, a large amount of data has been generated in a short time. However, researchers struggling to keep track of these mountains of information need a way to conveniently gain a comprehensive understanding of the relationship between microbiota and human diseases. To tackle this issue, we developed Amadis (http://gift2disease.net/GIFTED), a manually curated database that provides experimentally supported microbiota-disease associations and a dynamic network construction method. The current version of the Amadis database documents 20167 associations between 221 human diseases and 774 gut microbes across 17 species, curated from more than 1000 articles. By using the curated data, users can freely select and combine modules to obtain a specific microbe-based human disease network. Additionally, Amadis provides a user-friendly interface for browsing, searching and downloading. We hope it can serve as a useful and valuable resource for researchers exploring the associations between gastrointestinal microbiota and human diseases.

Pan-Cancer Analysis of Prognostic and Immune Infiltrates for CXCs

“…Amadis is a database that provides experimentally supported microbiota-disease associations [24]. With aid of Amadis's network analysis tools, we found that there could be an association between CXCL8, Fusobacterium nucleatum, and human diseases (including inflammatory bowel disease and colon cancer).…”

MADET: a Manually Curated Knowledge Base for Microbiomic Effects on Efficacy and Toxicity of Anticancer Treatments

“…On the other hand, microbes, including Lactobacillus reuteri ( 9 ), Lactobacillus gallinarum ( 10 ), and Streptococcus thermophilus ( 11 ) are reported to suppress tumorigenesis and cancer progression via multiple pathways, such as inhibiting the metabolism of tumor proliferation ( 11 ). To date, several databases have been constructed to document these positive or negative associations between gut microbiota and tumor development, such as mBodyMap ( 12 ), gutMDisorder ( 13 ), GMrepo ( 14 ), and Amadis ( 15 ). However, the important effects of microbiota on the efficacy and toxicity of anticancer drugs have not been systematically documented to date.…”

Fucosyltransferases Regulated by Fusobacterium Nucleatum Promote the Progression of Colon Adenocarcinoma

“…Amadis (http://gift2disease.net/GIFTED) is a database that provides experimental support for microbialdisease associations [23]. In this study, we used Amadis to explore the possible associations between FUTs, intestinal ora, and colon cancer.…”